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[bioontology-support] CUI meaning

Manuel Salvadores Olaizola manuelso at
Wed Nov 12 17:09:44 PST 2014


It is true that it can be confusing to see a property with no values in the CSV, that also applies to Semantic Type which is also a UMLS property. Thanks for your feedback. The main reason for this is to have always the same set of standard properties as first columns in the CSV to easy parsing across different types of ontologies. No matter if you are parsing UMLS, OWL or OBO the first 8 columns are always the same.

On a side note, we are working on a new version of the CSV files to extend the standard properties with contain all properties in the ontologies not just the standard ones that you listed in your initial email. This is going to be released very soon.


----- Original Message -----
From: "Erick Antezana" <erick.antezana at>
To: "Manuel Salvadores Olaizola" <manuelso at>
Cc: "support at Support" <support at>
Sent: Wednesday, November 12, 2014 4:44:23 PM
Subject: Re: [bioontology-support] CUI meaning

Hi Manuel,

Thanks for the clarification. If that property (CUI) is mainly for UMLS
ontologies, why do you add it to the CSV dump? It could create some
confusion. I would expect to get a dump holding common attributes,
properties to (almost) all ontology concepts/entries (e.g. comment,
creation date)


On 13 November 2014 01:51, Manuel Salvadores Olaizola <manuelso at
> wrote:

> Hi Erick,
> CUI is a property to record equivalence between two terms. If two terms
> have the same CUI value then they are equivalent. CUIs are mostly defined
> in UMLS ontologies but can be also found in other ontologies that map to
> UMLS. If the ontology you are looking at is not UMLS you might not see any
> values for this property.
> More detailed information here:
> Manuel
> ----- Original Message -----
> From: "Erick Antezana" <erick.antezana at>
> To: "support at Support" <support at>
> Sent: Wednesday, November 12, 2014 12:58:48 AM
> Subject: [bioontology-support] CUI meaning
> Hi,
> What does the CUI field header mean in the CSV files ?
> Header:
> Class ID,Preferred Label,Synonyms,Definitions,Obsolete,CUI,Semantic
> Types,Parents
> thanks,
> Erick
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at

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